TY - JOUR
T1 - Evaluation of flaA short variable region sequencing, multilocus sequence typing and Fourier transform infrared spectroscopy for discrimination between Campylobacter jejuni strains
AU - Josefsen, Mathilde Hartmann
AU - Bonnichsen, Lise
AU - Larsson, Jonas T.
AU - Nielsen, Eva M.
AU - Fricker, Martina
AU - Ehling-Schulz, Monica
AU - Hoorfar, Jeffrey
AU - Christensen, Laurids Siig
PY - 2012
Y1 - 2012
N2 - Discriminatory and robust typing methods are
needed to improve the understanding of the dynamics of
food-borne Campylobacter infections and epidemiology in
primary animal production. To evaluate the strain discriminatory
potential of typing methods, flaA short variable
region (SVR) sequencing and Fourier transform infrared
(FTIR) spectroscopy were applied on a collection of 102
epidemiologically related and unrelated Campylobacter
jejuni strains. Previous application of FTIR spectroscopy
for subtyping of Campylobacter has been limited. A subset
of isolates, initially discriminated by flaA SVR sequencing,
were further subjected to multilocus sequence typing
(MLST). It was found that flaA SVR sequencing had a
slightly higher discriminatory power than FTIR spectroscopy,
based on the Simpson diversity index. The clustering of
strains indicated that FTIR spectroscopy is indeed a suitable
method for discrimination of Campylobacter. The isolates
were assigned to six clusters based on flaA SVR sequences
and nine clusters based on the FTIR spectroscopy profiles.
Furthermore, the cluster analysis of flaA SVR sequences,
MLST, and FTIR spectroscopy profiles showed a high
degree of congruence, assigning the isolates to similar cluster
structures. In conclusion, FTIR spectroscopy can be
applied for subtyping of Campylobacter, and the high discriminatory
potential of both flaA SVR sequencing and
FTIR spectroscopy render them suitable screening methods
for large numbers of strains.
AB - Discriminatory and robust typing methods are
needed to improve the understanding of the dynamics of
food-borne Campylobacter infections and epidemiology in
primary animal production. To evaluate the strain discriminatory
potential of typing methods, flaA short variable
region (SVR) sequencing and Fourier transform infrared
(FTIR) spectroscopy were applied on a collection of 102
epidemiologically related and unrelated Campylobacter
jejuni strains. Previous application of FTIR spectroscopy
for subtyping of Campylobacter has been limited. A subset
of isolates, initially discriminated by flaA SVR sequencing,
were further subjected to multilocus sequence typing
(MLST). It was found that flaA SVR sequencing had a
slightly higher discriminatory power than FTIR spectroscopy,
based on the Simpson diversity index. The clustering of
strains indicated that FTIR spectroscopy is indeed a suitable
method for discrimination of Campylobacter. The isolates
were assigned to six clusters based on flaA SVR sequences
and nine clusters based on the FTIR spectroscopy profiles.
Furthermore, the cluster analysis of flaA SVR sequences,
MLST, and FTIR spectroscopy profiles showed a high
degree of congruence, assigning the isolates to similar cluster
structures. In conclusion, FTIR spectroscopy can be
applied for subtyping of Campylobacter, and the high discriminatory
potential of both flaA SVR sequencing and
FTIR spectroscopy render them suitable screening methods
for large numbers of strains.
KW - MLST
KW - Campylobacter jejuni
KW - Discrimination
KW - FTIR
KW - flaA
U2 - 10.1007/s12161-011-9333-y
DO - 10.1007/s12161-011-9333-y
M3 - Journal article
SN - 1936-9751
VL - 5
SP - 980
EP - 987
JO - Food Analytical Methods
JF - Food Analytical Methods
IS - 5
ER -